-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_26/scaffold_26_10063614-10171244

-reading genomic sequence.

** Processing features (+)

-finding all potential splice sites, looking for GT/GC donors and AG acceptors.
-finding all potential starts and stops. (strand: +)
-loading gene prediction evidence. (strand: +)Valid prediction for GlimmerHMM_glimmerT_56452-T1
Valid prediction for GlimmerHMM_glimmerT_56460-T1
Valid prediction for GlimmerHMM_glimmerT_56448-T1
Valid prediction for snap_scaffold_26-snap.2236-T1
Valid prediction for GlimmerHMM_glimmerT_56462-T1
Valid prediction for GlimmerHMM_glimmerT_56457-T1
Valid prediction for snap_scaffold_26-snap.2231-T1
Valid prediction for GlimmerHMM_glimmerT_56450-T1
Valid prediction for GlimmerHMM_glimmerT_56454-T1
Valid prediction for snap_scaffold_26-snap.2242-T1
Valid prediction for snap_scaffold_26-snap.2246-T1
Valid prediction for snap_scaffold_26-snap.2238-T1
Valid prediction for GlimmerHMM_glimmerT_56446-T1
Valid prediction for snap_scaffold_26-snap.2227-T1
Valid prediction for snap_scaffold_26-snap.2239-T1
Valid prediction for snap_scaffold_26-snap.2247-T1
Valid prediction for GlimmerHMM_glimmerT_56464-T1
Valid prediction for snap_scaffold_26-snap.2243-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_56453-T1
Valid prediction for snap_scaffold_26-snap.2228-T1
Valid prediction for snap_scaffold_26-snap.2237-T1
Valid prediction for GlimmerHMM_glimmerT_56463-T1
Couldn't classify 65404, 66057
Sorry, prediction pasa_asmbl_35920.p1 fails validation.
(CTG)	 TA	65404-66057	GT	GGG

-loading the search evidence (protein and EST search results, strand: +)
-scoring exons (strand: +)

** Processing features (-)

-finding all potential splice sites, looking for GT/GC donors and AG acceptors.
-finding all potential starts and stops. (strand: -)
-loading gene prediction evidence. (strand: -)Valid prediction for snap_scaffold_26-snap.2245-T1
Valid prediction for GlimmerHMM_glimmerT_56455-T1
Valid prediction for GlimmerHMM_glimmerT_56459-T1
Valid prediction for snap_scaffold_26-snap.2240-T1
Valid prediction for snap_scaffold_26-snap.2230-T1
Sorry, intron length (6) is less than minimum required (10)
Couldn't classify 67965, 68073
Sorry, prediction pasa_asmbl_35807.p1 fails validation.
(AGG)	 CC	67965-68073	GT	TGG
(GCC)	 AG	68328-68545	GT	AGG
(TTT)	 AG	68678-68830	GT	GGG
(GAG)	 AG	69224-69283	GT	CTG
(GAT)	 AG	69446-69496	GT	AAG
(TAC)	 AG	69595-69734	GT	AGG
(CCT)	 AG	72244-72325	GT	AGG
(TCC)	 AG	73536-73644	GT	AGG
(CAC)	 AG	74097-74304	GT	AGG
(GAA)	 AG	76680-76755	GG	AGG
-recovered pasa_asmbl_35807.p1, terminal, 76680, 76755
-recovered pasa_asmbl_35807.p1, internal, 68328, 68545
-recovered pasa_asmbl_35807.p1, internal, 68678, 68830
-recovered pasa_asmbl_35807.p1, internal, 69224, 69283
-recovered pasa_asmbl_35807.p1, internal, 69446, 69496
-recovered pasa_asmbl_35807.p1, internal, 69595, 69734
-recovered pasa_asmbl_35807.p1, internal, 72244, 72325
-recovered pasa_asmbl_35807.p1, internal, 73536, 73644
-recovered pasa_asmbl_35807.p1, internal, 74097, 74304
Valid prediction for CodingQuarry_transcript_40457-T1
Valid prediction for GlimmerHMM_glimmerT_56458-T1
Valid prediction for GlimmerHMM_glimmerT_56456-T1
Couldn't classify 27170, 27363
Sorry, prediction pasa_asmbl_35823.p1 fails validation.
(CTT)	 AT	27170-27363	GT	AGG
(GGT)	 AG	27616-27742	GT	AGG
(GTA)	 AG	28829-29017	GT	AGG
(GAG)	 AG	29221-29596	GT	CGG
(GTG)	 AG	29845-29975	GT	AGG
(GTA)	 AG	30060-30518	GA	GAG
-recovered pasa_asmbl_35823.p1, terminal, 30060, 30518
-recovered pasa_asmbl_35823.p1, internal, 27616, 27742
-recovered pasa_asmbl_35823.p1, internal, 28829, 29017
-recovered pasa_asmbl_35823.p1, internal, 29221, 29596
-recovered pasa_asmbl_35823.p1, internal, 29845, 29975
Valid prediction for CodingQuarry_transcript_40459-T1
Valid prediction for snap_scaffold_26-snap.2233-T1
Valid prediction for snap_scaffold_26-snap.2235-T1
Valid prediction for snap_scaffold_26-snap.2234-T1
Couldn't classify 57028, 57042
Sorry, prediction pasa_asmbl_35813.p1 fails validation.
(ATG)	 TC	53700-53762	GT	AGG
(GCC)	 AG	54177-54319	GT	CGG
(GCC)	 AG	55568-55643	GT	TAG
(GTG)	 AG	55770-55813	GT	TGG
(TGT)	 AG	55975-56045	GT	TGG
(GCA)	 AG	56169-56233	GT	AGG
(AGA)	 AG	56786-56830	GT	AAG
(CTA)	 AG	57028-57042	TA	CCT
-recovered pasa_asmbl_35813.p1, initial, 53700, 53762
-recovered pasa_asmbl_35813.p1, internal, 54177, 54319
-recovered pasa_asmbl_35813.p1, internal, 55568, 55643
-recovered pasa_asmbl_35813.p1, internal, 55770, 55813
-recovered pasa_asmbl_35813.p1, internal, 55975, 56045
-recovered pasa_asmbl_35813.p1, internal, 56169, 56233
-recovered pasa_asmbl_35813.p1, internal, 56786, 56830
Valid prediction for CodingQuarry_transcript_40455-T1
Valid prediction for snap_scaffold_26-snap.2229-T1
Valid prediction for GlimmerHMM_glimmerT_56461-T1
Valid prediction for pasa_asmbl_35817.p1
Valid prediction for GlimmerHMM_glimmerT_56451-T1
Valid prediction for snap_scaffold_26-snap.2248-T1
Valid prediction for GlimmerHMM_glimmerT_56449-T1
Valid prediction for GlimmerHMM_glimmerT_56465-T1
Valid prediction for snap_scaffold_26-snap.2244-T1
Valid prediction for snap_scaffold_26-snap.2232-T1
Valid prediction for CodingQuarry_transcript_40458-T1
Valid prediction for GlimmerHMM_glimmerT_56447-T1
Valid prediction for CodingQuarry_transcript_40456-T1
Valid prediction for snap_scaffold_26-snap.2241-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 85546, rend_intergenic: 83834  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 107631
-exon list size: 175


building trellis

0.6    
1.1    
1.7    
2.3    
2.8    
3.4    
4.0    
4.5    
5.1    
5.6    
6.2    
6.8    
7.3    
7.9    
8.5    
9.0    
9.6    
10.2    
10.7    
11.3    
11.9    
12.4    
13.0    
13.6    
14.1    
14.7    
15.3    
15.8    
16.4    
16.9    
17.5    
18.1    
18.6    
19.2    
19.8    
20.3    
20.9    
21.5    
22.0    
22.6    
23.2    
23.7    
24.3    
24.9    
25.4    
26.0    
26.6    
27.1    
27.7    
28.2    
28.8    
29.4    
29.9    
30.5    
31.1    
31.6    
32.2    
32.8    
33.3    
33.9    
34.5    
35.0    
35.6    
36.2    
36.7    
37.3    
37.9    
38.4    
39.0    
39.5    
40.1    
40.7    
41.2    
41.8    
42.4    
42.9    
43.5    
44.1    
44.6    
45.2    
45.8    
46.3    
46.9    
47.5    
48.0    
48.6    
49.2    
49.7    
50.3    
50.8    
51.4    
52.0    
52.5    
53.1    
53.7    
54.2    
54.8    
55.4    
55.9    
56.5    
57.1    
57.6    
58.2    
58.8    
59.3    
59.9    
60.5    
61.0    
61.6    
62.1    
62.7    
63.3    
63.8    
64.4    
65.0    
65.5    
66.1    
66.7    
67.2    
67.8    
68.4    
68.9    
69.5    
70.1    
70.6    
71.2    
71.8    
72.3    
72.9    
73.4    
74.0    
74.6    
75.1    
75.7    
76.3    
76.8    
77.4    
78.0    
78.5    
79.1    
79.7    
80.2    
80.8    
81.4    
81.9    
82.5    
83.1    
83.6    
84.2    
84.7    
85.3    
85.9    
86.4    
87.0    
87.6    
88.1    
88.7    
89.3    
89.8    
90.4    
91.0    
91.5    
92.1    
92.7    
93.2    
93.8    
94.4    
94.9    
95.5    
96.0    
96.6    
97.2    
97.7    
98.3    
98.9    
99.4    
-found 22 predictions from path traversal
Error with prediction: snap lend_intergenic: 85546, rend_intergenic: 83834  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 20 predictions persist after filtering for low support